public static void DoJob()
{
StreamWriter sw = new StreamWriter(Path.Combine(InputFileOrganizer.OutputFolderOfTheRun, "ExcludedProteinComparison.txt"));
String ExcludedProteinFile = "C:\\Coding\\2019LavalleeLab\\temp2\\Output\\Gold_MLGE_nonCheat.txt_output\\ExcludedProteinList.txt";
StreamReader sr = new StreamReader(ExcludedProteinFile);
List <String> inProgramConfidentlyIdentified = new List <String>();
String line = sr.ReadLine();
while (line != null)
{
inProgramConfidentlyIdentified.Add(line);
line = sr.ReadLine();
}
String proteinProphetFile = "C:\\Coding\\2019LavalleeLab\\GitProjectRealTimeMS\\TestData\\PreComputedFiles\\MS_QC_120min_interact.prot.xml";
ProteinProphetResult ppr = ProteinProphetEvaluator.getProteinProphetResult(proteinProphetFile);
List <String> realConfidentIdentified = ppr.getProteinsIdentified();
List <String> intersection = ListUtil.FindIntersection(inProgramConfidentlyIdentified, realConfidentIdentified);
sw.WriteLine("In-Program excluded: {0}", inProgramConfidentlyIdentified.Count);
sw.WriteLine("Real confidently identified: {0}", realConfidentIdentified.Count);
sw.WriteLine("Intersection: {0}", intersection.Count);
sw.Close();
}